Sequence
atgc intronic sequence ATGC exonic sequence...ctccggcccttctttggcttgtcctattatttggttgctaggatttcatagaaacacaaagatttgtggctaattattggaagaagctcctttctttcagGTTCTTCAAAGAAAAACAGAAGAGGCTGCAGTAGCTACCAAAAGGCTGAAAGAGTTACTAGAAGCTCGCAAATCTTCAGCACGTGATAATTCCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 17
ctccggcccttctttggcttgtcctattatttggttgctaggatttcatagaaacacaaagatttgtgg----ctaattattggaagaagctcctttctttcagGTTCTTCAAAGAAAAACAGAAGAGGCTGCAGTAGCTACCAAAAGGCTGAAAGAGTTACTAGAAGCTCGCAAATCTTCAGCACGTGATAATTCCG
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---catatcttacttagct-atataattacgtgtaagtttttccctcatattatcatgtctatttataaaatattaaatatcaaagttttgcatctttatgcagGTTTTGCAGAGGAAGACTGAAGAAGCTGCGATGGCTACCAAAAGGCTGAAAGAGTTACTAGAGGCTCGGAAATCATCAGGACGTGACAACTCAG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G026218_T02 (Zea mays), 3'ss of exon 17
ctccggcccttctttggcttgtcctattatttggttgctaggatttcatagaaacacaaagatttgtggctaattattggaa--gaagctcctttctttcagGTTCTTCAAAGAAAAACAGAAGAGGCTGCAGTAGCTACCAAAAGGCTGAAAGAGTTACTAGAAGCTCGCAAATCTTCAGCACGTGATAATTCCG
|| || | || | |||| | || | |||| || | || | | |||| | || || ||| || |||||| | ||||| || || ||||||||||| | ||||| ||||||||||||||| || |||||||| | |||||||| || ||||| | |||||
ttcaaatttttacatcttttattctatagatcctttctaaacatttttatttcactttca-atctatt-ctaacagctagagtcgacaacttttttttgcagGTTTTGCAAAGGAAGACCGAAGAGGCTGCTATGGCTACAAAAAGGCTGAAAGAGATATTAGAAGCTAGGAAATCTTCCGCCCGTGACAGTTCCG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 16
ctccggcccttctttggcttgtcctattatttggttgctaggatttcatagaaacacaaagatttgtggctaattattggaagaagctcctt-tctttcagGTTCTTCAAAGAAAAACAGAAGAGGCTGCAGTAGCTACCAAAAGGCTGAAAGAGTTACTAGAAGCTCGCAAATCTTCAGCACGTGATAATTCCG
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-------------gtaaagattcttatgatataattgtcttttttcccgcttgagagaaacataagagtctcaagagaaaatgcatcttaatgtcttgcagGTTCTTCAGAGAAAAACAGAAGAAGCAGCAATGGCTACCAAAAGACTTAAAGAGCTGCTAGAAGCCCGCAAGTCTTCACCTCATGATATATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatagaaacacaaagatttgtggctaattattggaagaagctcctttctttcagGTTCTTCAAAGAAAAACAGAAGAGGCTGCAGTAGCTACCAAAAGGCTGAAAGAGTTACTAGAAGCTCGCAAATCTTCAGCACGTGATAATTCCG
ggctaat putative branch site (score: 3)
ctcctttctttc putative PPT
taattatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctccggcccttctttggcttgtcctattatttggttgctaggatttcatagaaacacaaagatttgtggctaattattggaagaagctcctttctttcagGTTCTTCAAAGAAAAACAGAAGAGGCTGCAGTAGCTACCAAAAGGCTGAAAGAGTTACTAGAAGCTCGCAAATCTTCAGCACGTGATAATTCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - cccttct
- - - - - - - tggcttg
- - - - - - - - - - - - - - - -tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - gaaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaa